An interactive dot matrix system for locating potentially significant features in nucleic acid molecules.

B A Shapiro; R Nussinov; L E Lipkin; J V Maizel

doi:10.1080/07391102.1987.10507673

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An interactive dot matrix system for locating potentially significant features in nucleic acid molecules.

B A Shapiro·R Nussinov·L E Lipkin·J V Maizel

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Abstract

An interactive computer system using a dot matrix approach has been developed and used to determine potentially significant features due to distortions in the B-DNA helix as a result of variations of purine and pyrimidine patterns. Sequences were compared using matrices which were generated using the Calladine-Dickerson rules (C.R. Calladine, J. Mol. Biol. 161, 343-352, 1982 and R.E. Dickerson, J. Mol. Biol. 166, 419-441, 1983). Having control over various parameters to enhance different aspects of the visual appearance of these matrices was helpful in discovering patterns that were not known a priori. Specifically, it was found that a pattern of alternating doublets of purines and pyrimidines appear to exist in regulatory regions. This event is shown to be beyond probabilistic expectation.

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Base Sequence DNA Data Display Genes, Viral Image Processing, Computer-Assisted Man-Machine Systems Nucleic Acid Conformation Polyomavirus Regulatory Sequences, Nucleic Acid Retroviridae Sequence Homology, Nucleic Acid Simian virus 40 Software Comparative Study Journal Article

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B A Shapiro, R Nussinov, L E Lipkin, J V Maizel. 1987. An interactive dot matrix system for locating potentially significant features in nucleic acid molecules.. https://doi.org/10.1080/07391102.1987.10507673

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